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At least 973 records · Page 54

Pedestal particle balance studies in JET-ILW H-mode plasmas

JET-ILW type I ELMy H-modes at 2.5 MA/2.8 T with constant NBI heating (23 MW) and gas fuelling rate were performed, utilising edge localised mode (ELM) pacing by vertical kicks and plasma shaping (triangularity, δ) as tools to disentangle the effects of ELMs, inter-ELM transport and edge stability on the pedestal particle balance. In agreement with previous studies, the pedestal confinement improves with increasing δ, mostly due to a significant increase in pedestal density while the ELM frequency ($f_{\mathrm{ELM}}$) is decreased. Improved pedestal confinement with increasing δ was observed even when the pedestal MHD stability was degraded artificially by vertical kicks, implying that increased triangularity may favourably affect the inter-ELM pedestal recovery. The workflow developed to quantify the pedestal particle balance uses high time-resolution profile reflectometry to characterise the inter-ELM evolution of the plasma particle content ($\mathrm{d} N/\mathrm{d}t$), the NEO drift-kinetic solver to evaluate the neoclassical fluxes and interpretative EDGE2D-EIRENE simulations to estimate the edge particle source. The edge particle source is then constrained by deuterium Balmer-α line intensity measurements in the main chamber, which are, however, strongly affected by reflections from the metal walls. The reflections are accounted for by the CHERAB code taking the divertor emission (the brightest light source in the torus) distribution from imaging spectroscopy measurements as input. Our analysis shows that in the second half of the ELM cycle, the volume-integrated particle source is larger than $\mathrm{d} N/\mathrm{d}t$, indicating that transport plays a key role in the inter-ELM pedestal recovery.

fuelling↗

Optimization of simulated high-field side lower hybrid current drive coupling using machine learning predictions of scrape-off layer density

Lower hybrid current drive (LHCD) is a potential source of non-inductive off-axis current drive (CD) for tokamaks. Although LHCD has been successfully deployed on a number of tokamaks, it is highly sensitive to the scrape-off layer (SOL) conditions local to the LHCD launcher. Large gaps between the launcher and plasma core, SOL turbulence, or edge density perturbations due to edge-localized modes can hamper CD or cause large reflected power. These coupling issues in part motivated the installation of an LHCD launcher on the high-field side (HFS) of DIII-D. On the HFS, the SOL is less turbulent and more controllable compared to the low-field side. This quiescence may result in more predictable edge conditions and thus a more predictable CD. Here, in this work, HFS SOL reflectometry measurements are predicted from global plasma parameters using machine learning models. The SOL predictions coupled with the full-wave simulation of the LHCD launcher allow for the prediction of reflected power, directivity, and arcing risk before the discharge. Launcher performance is then optimized using multi-objective Bayesian optimization, finding the shot parameters that result in an optimal SOL density that maximizes CD while minimizing the risk of arcing. The predictions and optimizations of LHCD performance are then accelerated using a surrogate model of the full-wave LHCD simulation.

Bayesian optimization↗

Daytime cooling efficiencies of urban trees derived from land surface temperature are much higher than those for air temperature

Accurately capturing the impact of urban trees on temperature can help optimize urban heat mitigation strategies. Recently, there has been widespread use of remotely sensed land surface temperature (T s ) to quantify the cooling efficiency (CE) of urban trees. However, remotely sensed T s reflects emitted radiation from the surface of an object seen from the point of view of the thermal sensor, which is not a good proxy for the air temperature (T a ) perceived by humans. The extent to which the CEs derived from T s reflect the true experiences of urban residents is debatable. Therefore, this study systematically compared the T s -based CE (CE T s ) with the T a -based CE (CE T a ) in 392 European urban clusters. CE T s and CE T a were defined as the reductions in T s and T a , respectively, for every 1% increase in fractional tree cover (FTC). The results show that the increase in FTC has a substantial impact on reducing T s and T a in most cities during daytime. However, at night, the response of T s and T a to increased FTC appears to be much weaker and ambiguous. On average, for European cities, daytime CE T s reaches 0.075 °C % -1 , which is significantly higher (by an order of magnitude) than the corresponding CE T a of 0.006 °C % -1 . In contrast, the average nighttime CE T s and CE T a for European cities are similar, both approximating zero. Overall, urban trees can lower daytime temperatures, but the magnitude of their cooling effect is notably amplified when using remotely sensed T s estimates compared to in situ T a measurements, which is important to consider for accurately constraining public health benefits. Our findings provide critical insights into the realistic efficiencies of alleviating urban heat through tree planting.

54 ENVIRONMENTAL SCIENCES↗

Albedo of crops as a nature-based climate solution to global warming

Abstract Surface albedo can affect the energy budget and subsequently cause localized warming or cooling of the climate. When we convert a substantial portion of lands to agriculture, land surface properties are consequently altered, including albedo. Through crop selection and management, one can increase crop albedo to obtain higher levels of localized cooling effects to mitigate global warming. Still, there is little understanding about how distinctive features of a cropping system may be responsible for elevated albedo and consequently for the cooling potential of cultivated lands. To address this pressing issue, we conducted seasonal measurements of surface reflectivity during five growing seasons on annual crops of corn-soybean–winter wheat ( Zea mays L.- Glycine max L. Merrill - Triticum aestivum L. ; CSW) rotations at three agronomic intensities, a monoculture of perennial switchgrass ( Panicum virgatum L. ), and perennial polycultures of early successional and restored prairie grasslands. 
We found that crop-species, agronomic intensity, seasonality, and plant phenology had significant effects on albedo. The mean±SD albedo was highest in perennial crops of switchgrass (0.179±0.04), intermediate in early successional crops (0.170±0.04), and lowest in a reduced input corn systems with cover crops (0.154±0.02). The strongest cooling potentials were found in soybean (-0.450 kg CO 2 e m -2 yr -1 ) and switchgrass (-0.367 kg CO 2 e m -2 yr -1 ), with up to -0.265 kg CO 2 e m -2 yr -1 of localized climate cooling annually provided by different agroecosystems. We also demonstrated how diverse ecosystems, leaf canopy, and agronomic practices can affect surface reflectivity and provide another potential nature-based solution for reducing global warming at localized scales.

Lei, Cheyenne (ORCID:0000000272746309)↗

Not even 6 dB: Gaussian quantum illumination in thermal background

Abstract In analyses of target detection with Gaussian state transmitters in a thermal background, the thermal occupation is taken to depend on the target reflectivity in a way which simplifies the analysis of the symmetric quantum hypothesis testing problem. However, this assumption precludes comparison of target detection performance between an arbitrary transmitter and a vacuum state transmitter, i.e. ‘detection without illumination’, which is relevant in a bright thermal background because a target can be detected by its optical shadow or some other perturbation of the background. Using a target-agnostic thermal environment leads to the result that the oft-claimed 6 dB possible reduction in the quantum Chernoff exponent for a two-mode squeezed vacuum transmitter over a coherent state transmitter in high-occupation thermal background is an unachievable limiting value, only occurring in a limit in which the target detection problem is ill-posed. Further analyzing quantum illumination in a target-agnostic thermal environment shows that a weak single-mode squeezed transmitter performs worse than ‘no illumination’, which is explained by the noise-increasing property of reflected low-intensity squeezed light.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Printing of electromagnetic interference shielding materials

Here, the proliferation of electronic devices has made electromagnetic interference (EMI) shielding an exponentially growing business. Regulatory requirements change constantly as new technologies continue to emerge. Innovations in materials and new advances in shielding implementation techniques are needed to pass regulatory compliance tests at an affordable cost. Here, we print various EMI shielding materials such as copper, silver and a composite of copper with Fe 3 O 4 using plasma jet printing. Printing enables shields only a few microns thick capable of high shielding effectiveness. Copper's EMI shielding performance is primarily contributed by reflection mechanism, as expected and this is known to cause secondary pollution. A Green Index for EMI shielding, given by the ratio of absorption and reflection contributions to shielding, indicates values lower than 0.1 for printed copper films.

36 MATERIALS SCIENCE↗

Transboundary effects from idealized regional geoengineering

Regional geoengineering, by reflecting sunlight over a very limited spatial domain, might be considered as a means to target specific regional impacts of climate change. One of the obvious concerns raised by such approaches is the extent to which the resulting effects would be detectable well beyond the targeted region (e.g. in neighbouring countries). A few studies have explored this question for targeted regions that are still comparatively large. We consider idealized simulations with increased ocean albedo over relatively small domains; the Gulf of Mexico (0.23% of Earth's surface) and over the Australian Great Barrier Reef (0.07%), both with negligible global radiative forcing. Applied over these very small domains, the only statistically significant non-local changes we find are some limited reduction on summer precipitation in Florida in the Gulf of Mexico case (adjacent to the targeted region). The lack of transboundary effects suggests that governance needs for such targeted interventions are quite distinct from those for more global sunlight reflection.

54 ENVIRONMENTAL SCIENCES↗

Machine learning for neutron reflectometry data analysis of two-layer thin films

Neutron reflectometry (NR) is a powerful tool for probing thin films at length scales down to nanometers. We investigated the use of a neural network to predict a two-layer thin film structure to model a given measured reflectivity curve. Application of this neural network to predict a thin film structure revealed that it was accurate and could provide an excellent starting point for traditional fitting methods. Employing prediction-guided fitting has considerable potential for more rapidly producing a result compared to the labor-intensive but commonly-used approach of trial and error searches prior to refinement. A deeper look at the stability of the predictive power of the neural network against statistical fluctuations of measured reflectivity profiles showed that the predictions are stable. We conclude that the approach presented here can provide valuable assistance to users of NR and should be further extended for use in studies of more complex n-layer thin film systems. This result also opens up the possibility of developing adaptive measurement systems in the future.

36 MATERIALS SCIENCE↗

SBbadger: biochemical reaction networks with definable degree distributions

Abstract Motivation An essential step in developing computational tools for the inference, optimization and simulation of biochemical reaction networks is gauging tool performance against earlier efforts using an appropriate set of benchmarks. General strategies for the assembly of benchmark models include collection from the literature, creation via subnetwork extraction and de novo generation. However, with respect to biochemical reaction networks, these approaches and their associated tools are either poorly suited to generate models that reflect the wide range of properties found in natural biochemical networks or to do so in numbers that enable rigorous statistical analysis. Results In this work, we present SBbadger, a python-based software tool for the generation of synthetic biochemical reaction or metabolic networks with user-defined degree distributions, multiple available kinetic formalisms and a host of other definable properties. SBbadger thus enables the creation of benchmark model sets that reflect properties of biological systems and generate the kinetics and model structures typically targeted by computational analysis and inference software. Here, we detail the computational and algorithmic workflow of SBbadger, demonstrate its performance under various settings, provide sample outputs and compare it to currently available biochemical reaction network generation software. Availability and implementation SBbadger is implemented in Python and is freely available at https://github.com/sys-bio/SBbadger and via PyPI at https://pypi.org/project/SBbadger/. Documentation can be found at https://SBbadger.readthedocs.io. Supplementary information Supplementary data are available at Bioinformatics online.

59 BASIC BIOLOGICAL SCIENCES↗

Plasma phosphorylated tau217 strongly associates with memory deficits in the Alzheimer’s disease spectrum

Abstract Plasma phosphorylated tau (p-tau) biomarkers open unprecedented opportunities for identifying carriers of Alzheimer’s disease pathophysiology in early disease stages using minimally invasive techniques. Plasma p-tau biomarkers are believed to reflect tau phosphorylation and secretion. However, it remains unclear to what extent the magnitude of plasma p-tau abnormalities reflects neuronal network disturbance in the form of cognitive impairment. To address this question, we included 103 cognitively unimpaired elderly and 40 cognitively impaired, amyloid-β-positive individuals from the TRIAD cohort, in addition to 336 cognitively unimpaired and 216 cognitively impaired, amyloid-β-positive older adults from the BioFINDER-2 cohort. Participants had tau PET scans, amyloid PET scans or amyloid CSF, p-tau217, p-tau181 and p-tau231 blood measures, structural T1-MRI and cognitive assessments. In this cross-sectional study, we used regression models and correlation analyses to assess the relationship between plasma biomarkers and cognitive scores. Furthermore, we applied receiver operating characteristic curves to assess cognitive impairment across plasma biomarkers. Finally, we categorized participants into amyloid (A), p-tau (T1) and tau PET (T2) positive (+) or negative (−) profiles and ran non-parametric comparisons to assess differences across cognitive domains. We found that plasma p-tau217 was more associated with cognitive performance than p-tau181 and p-tau231 and that this relationship was particularly strong for memory scores (TRIAD: βp-tau217 = −0.53, βp-tau181 = −0.35 and βp-tau231 = −0.24; BioFINDER-2: βp-tau217 = −0.52, βp-tau181 = −0.24 and βp-tau231 = −0.29). Associations in amyloid-β-positive participants resembled these results, but other cognitive scores also showed strong associations in cognitively impaired individuals. Moreover, plasma p-tau217 outperformed plasma p-tau181 and plasma p-tau231 in identifying memory impairment (area under the curve values for TRIAD: p-tau217 = 0.86, p-tau181 = 0.77 and p-tau231 = 0.75; and for BioFINDER-2: p-tau217 = 0.86, p-tau181 = 0.76 and p-tau231 = 0.81) and in identifying executive function impairment only in the BioFINDER-2 cohort (p-tau217 = 0.82, p-tau181 = 0.76 and p-tau231 = 0.76). Lastly, we showed that subtle memory deficits were present in A+T1+T2− participants for plasma p-tau217 (P = 0.007) and plasma p-tau181 (P = 0.01) in the TRIAD cohort and for all biomarkers across cognitive domains in A+T1+T2− and A+T1+T2− individuals (P < 0.001 in all) in the BioFINDER-2 cohort. The A+T1+T2− individuals showed cognitive deficits in both cohorts (P < 0.001 in all). Together, our results suggest that plasma p-tau217 stands out as a biomarker capable of identifying memory deficits attributable to Alzheimer’s disease and that memory impairment certainly occurs in amyloid-β- and plasma p-tau-positive individuals who have no significant amounts of tau in the neocortex.

Neurosciences & Neurology↗

Efficient 3-D velocity model building using joint inline and crossline plane-wave wave-equation migration velocity analyses

SUMMARY Wave-equation migration velocity analysis (WEMVA) is an image-domain inversion method for velocity model building. Automatic plane-wave WEMVA (PWEMVA) calculates the moveouts of plane-wave common-image gathers (CIGs) by searching a best-fitting parabola with semblance analysis and backprojects residual CIG moveouts into wavefield wave paths with a reflection tomographic kernel. However, 3-D PWEMVA is very computationally expensive because 3-D reflection tomographic inversion requires at least five 3-D reverse-time migrations per iteration and stores two types of source wavefields at model boundaries. We develop a joint inline and crossline PWEMVA method for efficient 3-D velocity model building. We alternatively implement the inline and crossline PWEMVAs with a constraint for each other, in which we iteratively construct the 3-D velocity model update through 1-D spline interpolation of 2-D gradients. The inline and crossline joint inversion is practical since PWEMVA only inverts for low-wavenumber velocity perturbations along wave paths, and the method can take less than 1 per cent of the computational cost of full 3-D PWEMVA. To construct unaliased plane waves for our joint inline and crossline PWEMVA, we develop a 3-D data interpolation method in the frequency–wavenumber (FK) domain to recover regularly and randomly missing traces. The method minimizes the misfit on sufficiently localized data subsets with iterative optimal step lengths and a gradient preconditioner that iteratively selects dominant dips along different azimuths. In numerical experiments, we use a 3-D synthetic seismic data set and a land 3-D field seismic data set acquired at the Farnsworth CO2-EOR (enhanced oil recovery) field to demonstrate the efficacy of our velocity model building and data interpolation methods.

Liu, Xuejian↗

Language Barriers in Organismal Biology: What Can Journals Do Better?

Synopsis In the field of organismal biology, as in much of academia, there is a strong incentive to publish in internationally recognized, highly regarded, English-language journals to promote career advancement. This expectation has created a linguistic hegemony in scientific publishing, whereby scholars for whom English is an additional language face additional barriers to achieving the same scientific recognition as scholars who speak English as a first language. Here, we surveyed the author guidelines of 230 journals in organismal biology with impact factors of 1.5 or greater for linguistically inclusive and equitable practices and policies. We looked for efforts that reflect first steps toward reducing barriers to publication for authors globally, including the presence of statements that encouraged submissions from authors of diverse nationalities and backgrounds, policies regarding manuscript rejection based on perceived inadequacies of the English language, the existence of bias-conscious reviewer practices, whether translation and editing resources or services are available, allowance for non-English abstracts, summaries, or translations, and whether journals offer license options that would permit authors (or other scholars) to translate their work and publish it elsewhere. We also directly contacted a subset of journals to verify whether the information on their author guidelines page accurately reflects their policies and the accommodations they would make. We reveal that journals and publishers have made little progress toward beginning to recognize or reduce language barriers. Counter to our predictions, journals associated with scientific societies did not appear to have more inclusive policies compared to non-society journals. Many policies lacked transparency and clarity, which can generate uncertainty, result in avoidable manuscript rejections, and necessitate additional time and effort from both prospective authors and journal editors. We highlight examples of equitable policies and summarize actions that journals can take to begin to alleviate barriers to scientific publishing.

Nolde-Lopez, B.↗

Reproduction drives changes in space use and habitat selection in a highly adaptable invasive mammal

Abstract For ungulates, it is not well understood how the interaction between habitat and reproduction affects movement behavior, space use, and habitat selection. We used known parturition (farrowing) data to validate First Passage Time (FPT) movement analysis to identify wild pig (Sus scrofa) parturition events from data collected with GPS collars. We examined home range and habitat selection during three physiologically distinct time periods in the reproductive cycle: late-gestation; farrowing; and neonate-care period. Sows exhibited a behavioral change 1-2 days prior to farrowing, suggesting FPT analysis can reliably identify parturition events for wide-ranging species that have a focused birthing area. Home range was smallest during the farrowing period, likely reflective of nest building, parturition, and protection of neonates. Home range size during the neonate-care period was intermediate between the late-gestation and farrowing periods, indicative of offspring care that may restrict maternal movement. Across all periods, sows avoided developed areas that have sparse canopy and ground cover and are associated with human activities. During late-gestation, sows avoided pine forests that have an open understory and less vegetative cover. During late-gestation and neonate-care, sows selected bottomland hardwood forests, habitat associated with ample food, cover, and water. During farrowing and neonate-care periods, sows selected upland hardwood forests, habitat with high quality food and cover for neonates. The physiological requirements of reproduction drive female habitat selection and spatial scale of movement patterns associated with parturition. Our study contributes to delineation of the appropriate scale at which to analyze movement data to provide insight about where individuals chose to place their home range, how much space to use, and how they use resources on the landscape to maximize reproductive success and fitness.

Zoology↗

The impact of light polarization effects on weak lensing systematics

ABSTRACT A fraction of the light observed from edge-on disc galaxies is polarized due to two physical effects: selective extinction by dust grains aligned with the magnetic field and scattering of the anisotropic starlight field. Since the reflection and transmission coefficients of the reflecting and refracting surfaces in an optical system depend on the polarization of incoming rays, this optical polarization produces both (a) a selection bias in favour of galaxies with specific orientations and (b) a polarization-dependent point spread function (PSF). In this work, we build toy models to obtain for the first time an estimate for the impact of polarization on PSF shapes and the impact of the selection bias due to the polarization effect on the measurement of the ellipticity used in shear measurements. In particular, we are interested in determining if this effect will be significant for Wide-Field Infrared Survey Telescope (WFIRST). We show that the systematic uncertainties in the ellipticity components are 8 × 10−5 and 1.1 × 10−4 due to the selection bias and PSF errors respectively. Compared to the overall requirements on knowledge of the WFIRST PSF ellipticity (4.7 × 10−4 per component), both of these systematic uncertainties are sufficiently close to the WFIRST tolerance level that more detailed studies of the polarization effects or more stringent requirements on polarization-sensitive instrumentation for WFIRST are required.

79 ASTRONOMY AND ASTROPHYSICS↗

Emergence of the temperature–density relation in the low-density intergalactic medium

We examine the evolution of the phase diagram of the low-density intergalactic medium during the Epoch of Reionization in simulation boxes with varying reionization histories from the Cosmic Reionization on Computers project. The probability density function (PDF) of gas temperature at fixed density exhibits two clear modes: a warm and a cold temperature mode, corresponding to the gas inside and outside of ionized bubbles. We find that the transition between the two modes is ‘universal’ in the sense that its timing is accurately parametrized by the value of the volume-weighted neutral fraction for any reionization history. This ‘universality’ is more complex than just a reflection of the fact that ionized gas is warm and neutral gas is cold: it holds for the transition at a fixed value of gas density, and gas at different densities transitions from the cold to the warm mode at different values of the neutral fraction, reflecting a non-trivial relationship between the ionization history and the evolving gas density PDF. Furthermore, the ‘emergence’ of the tight temperature–density relation in the warm mode is also approximately ‘universally’ controlled by the volume-weighted neutral fraction for any reionization history. In particular, the ‘emergence’ of the temperature–density relation (as quantified by the rapid decrease in its width) occurs when the neutral fraction is 10 –4 ≲ X HI ≲ 10 –3 for any reionization history. Our results indicate that the neutral fraction is a primary quantity controlling the various properties of the temperature–density relation, regardless of reionization history.

79 ASTRONOMY AND ASTROPHYSICS↗

Purple is the new green: biopigments and spectra of Earth-like purple worlds

ABSTRACT With more than 5500 detected exoplanets, the search for life is entering a new era. Using life on Earth as our guide, we look beyond green landscapes to expand our ability to detect signs of surface life on other worlds. While oxygenic photosynthesis gives rise to modern green landscapes, bacteriochlorophyll-based anoxygenic phototrophs can also colour their habitats and could dominate a much wider range of environments on Earth-like exoplanets. Here, we characterize the reflectance spectra of a collection of purple sulfur and purple non-sulfur bacteria from a variety of anoxic and oxic environments. We present models for Earth-like planets where purple bacteria dominate the surface and show the impact of their signatures on the reflectance spectra of terrestrial exoplanets. Our research provides a new resource to guide the detection of purple bacteria and improves our chances of detecting life on exoplanets with upcoming telescopes. Our biological pigment data base for purple bacteria and the high-resolution spectra of Earth-like planets, including ocean worlds, snowball planets, frozen worlds, and Earth analogues, are available online, providing a tool for modellers and observers to train retrieval algorithms, optimize search strategies, and inform models of Earth-like planets, where purple is the new green.

Coelho, Lígia Fonseca (ORCID:0000000150081249)↗

Revealing the frequency-dependent oscillations in the nonlinear terahertz response induced by the Josephson current

ABSTRACT Nonlinear responses of superconductors to intense terahertz radiation has been an active research frontier. Using terahertz pump-terahertz probe spectroscopy, we investigate the c-axis nonlinear optical response of a high-temperature superconducting cuprate. After excitation by a single-cycle terahertz pump pulse, the reflectivity of the probe pulse oscillates as the pump-probe delay is varied. Interestingly, the oscillatory central frequency scales linearly with the probe frequency, a fact widely overlooked in pump-probe experiments. By theoretically solving the nonlinear optical reflection problem on the interface, we show that our observation is well explained by the Josephson-type third-order nonlinear electrodynamics, together with the emission coefficient from inside the material into free space. The latter results in a strong enhancement of the emitted signal whose physical frequency is around the Josephson plasma edge. Our result offers a benchmark for and new insights into strong-field terahertz spectroscopy of related quantum materials.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

From sensing to acclimation: The role of membrane lipid remodeling in plant responses to low temperatures

Abstract Low temperatures pose a dramatic challenge to plant viability. Chilling and freezing disrupt cellular processes, forcing metabolic adaptations reflected in alterations to membrane compositions. Understanding the mechanisms of plant cold tolerance is increasingly important due to anticipated increases in the frequency, severity, and duration of cold events. This review synthesizes current knowledge on the adaptive changes of membrane glycerolipids, sphingolipids, and phytosterols in response to cold stress. We delve into key mechanisms of low-temperature membrane remodeling, including acyl editing and headgroup exchange, lipase activity, and phytosterol abundance changes, focusing on their impact at the subcellular level. Furthermore, we tabulate and analyze current gycerolipidomic data from cold treatments of Arabidopsis, maize, and sorghum. This analysis highlights congruencies of lipid abundance changes in response to varying degrees of cold stress. Ultimately, this review aids in rationalizing observed lipid fluctuations and pinpoints key gaps in our current capacity to fully understand how plants orchestrate these membrane responses to cold stress.

Plant Sciences↗